←Back to structures
DNA-directed_RNA_polymerase_subunit_alpha
Euk-VirMelbournevirus
DNA-directed_RNA_polymerase_subunit_alpha__YP_009094548__Melbournevirus__1560514
Identity
- Accession:
- YP_009094548 ↗
- Protein ID:
- DNA-directed_RNA_polymerase_subunit_alpha
- Kingdom:
- euk
Quality
71.1
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Pimascovirales›
Marseilleviridae›
Marseillevirus›
Marseillevirus_sp._'Melbournevirus'
TaxID: 1560514
Cluster
View cluster (7 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 74-162_215-266
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04983.24 best | RNA_pol_Rpb1_3 | 57.4 | 2.30e-15 | 99.3% | 90.7% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1twfA05 | 1.10.274.100 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 | 0.72 | 68.0 | 6.61e-01 | 98.6% | 94.8% |
| 4c3iA04 | 1.10.274.100 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 | 0.70 | 62.0 | 5.93e-01 | 92.2% | 95.7% |
| 4qiwA04 | 1.10.274.100 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 | 0.70 | 66.0 | 5.96e-01 | 98.6% | 86.3% |
| 7oqyA01 | 1.10.274.100 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 | 0.69 | 61.0 | 6.04e-01 | 92.9% | 96.6% |
| 6f40A01 | 1.10.274.100 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 | 0.68 | 56.0 | 5.50e-01 | 85.8% | 96.7% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3206396 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.79 | 60.0 | 6.71e-01 | 93.6% | 95.7% |
| 4948679 | 1.1.2.2 ↗ | beta barrels › cradle loop barrel › RIFT-related › double psi › RNA_pol_Rpb1_2 | 0.77 | 70.0 | 5.13e-01 | 100.0% | 40.8% |
| 3693563 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.72 | 65.0 | 6.19e-01 | 93.6% | 96.2% |
| 4012261 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.72 | 65.0 | 6.17e-01 | 93.6% | 96.9% |
| 3923417 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.72 | 64.0 | 6.01e-01 | 92.2% | 95.8% |
| 3709289 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.72 | 64.0 | 6.21e-01 | 92.9% | 96.8% |
| 4261866 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.72 | 64.0 | 6.07e-01 | 92.2% | 96.2% |
| 4667658 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.72 | 63.0 | 5.91e-01 | 90.8% | 95.8% |
| 3592133 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 64.0 | 5.68e-01 | 92.9% | 96.8% |
| 4938234 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 61.0 | 6.14e-01 | 92.9% | 88.6% |
| 3670781 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 63.0 | 5.87e-01 | 92.2% | 97.1% |
| 3483005 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 64.0 | 5.84e-01 | 92.9% | 96.0% |
| 5048449 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 64.0 | 6.13e-01 | 93.6% | 90.6% |
| 3722538 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 63.0 | 5.72e-01 | 92.2% | 95.6% |
| 3414196 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.71 | 62.0 | 5.77e-01 | 90.8% | 95.3% |
| 4015758 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.71 | 64.0 | 6.07e-01 | 93.6% | 97.5% |
| 4933545 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.70 | 62.0 | 6.41e-01 | 91.5% | 96.3% |
| 5000429 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.70 | 62.0 | 6.17e-01 | 92.2% | 93.8% |
| 4943461 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.69 | 61.0 | 6.02e-01 | 91.5% | 95.3% |
| 3596096 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.69 | 62.0 | 6.29e-01 | 92.9% | 95.7% |
| 4979447 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.69 | 61.0 | 5.66e-01 | 90.8% | 83.4% |
| 3614240 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.69 | 61.0 | 6.19e-01 | 91.5% | 94.3% |
| 5043376 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.69 | 62.0 | 6.20e-01 | 93.6% | 95.2% |
| 2772083 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.68 | 61.0 | 5.95e-01 | 92.2% | 95.3% |
| 5054582 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.68 | 62.0 | 6.23e-01 | 93.6% | 95.7% |
| 5034276 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.68 | 60.0 | 5.68e-01 | 91.5% | 88.1% |
| 4983204 | 4959.1.1.0 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit | 0.65 | 51.0 | 5.17e-01 | 81.6% | 94.3% |
| 5055714 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.64 | 57.0 | 5.86e-01 | 93.6% | 97.0% |
D2
medium
residues 277-426
Domain cluster:
rep: IMGVR_UViG_3300026526_001751-3300026526-Ga0256869_10341511__D627-809
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05000.23 best | RNA_pol_Rpb1_4 | 63.8 | 1.70e-17 | 74.0% | 87.8% |
CATH (14)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2o5iN07 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.83 | 61.0 | 6.97e-01 | 90.0% | 98.3% |
| 3h0gA05 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.82 | 72.0 | 7.36e-01 | 91.3% | 98.6% |
| 4aybA07 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.82 | 63.0 | 7.02e-01 | 82.0% | 98.3% |
| 5fj8A06 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.81 | 70.0 | 7.11e-01 | 90.7% | 97.3% |
| 1m5iA00 | 1.10.287.450 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.66 | 29.0 | 3.47e-01 | 86.0% | 58.1% |
| 2js5A00 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.61 | 27.0 | 3.85e-01 | 89.3% | 87.3% |
| 5mlc900 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.60 | 40.0 | 4.67e-01 | 80.0% | 93.5% |
| 3hgtA00 | 3.40.50.12360 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.57 | 50.0 | 4.02e-01 | 94.0% | 94.1% |
| 4wqoD00 | 1.20.1310.10 | Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats | 0.57 | 34.0 | 3.53e-01 | 80.0% | 61.0% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.53 | 37.0 | 4.12e-01 | 80.0% | 90.6% |
| 5h5mA02 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.52 | 41.0 | 4.36e-01 | 84.7% | 96.9% |
| 3bujA00 | 1.10.630.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 | 0.51 | 46.0 | 3.45e-01 | 100.0% | 74.1% |
| 2b0hA01 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.51 | 39.0 | 4.16e-01 | 86.7% | 93.0% |
| 1xfiA02 | 1.20.1700.10 | Mainly Alpha › Up-down Bundle › AF1104-like › AF1104-like | 0.50 | 30.0 | 3.65e-01 | 73.3% | 95.6% |
ECOD (32)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4298800 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.85 | 71.0 | 5.81e-01 | 100.0% | 52.2% |
| 3959563 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.85 | 70.0 | 5.90e-01 | 100.0% | 54.5% |
| 3596868 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.85 | 81.0 | 5.57e-01 | 100.0% | 35.3% |
| 3938779 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 81.0 | 7.06e-01 | 100.0% | 75.2% |
| 4647018 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.84 | 71.0 | 6.54e-01 | 100.0% | 71.0% |
| 3784119 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 80.0 | 5.92e-01 | 100.0% | 45.1% |
| 3907707 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.84 | 80.0 | 5.73e-01 | 100.0% | 40.5% |
| 3711496 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 80.0 | 6.95e-01 | 100.0% | 73.5% |
| 5031555 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.84 | 80.0 | 6.25e-01 | 100.0% | 54.5% |
| 5081035 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.84 | 80.0 | 6.71e-01 | 100.0% | 67.2% |
| 4513601 | 4246.1.1.0 ↗ | a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit | 0.84 | 70.0 | 4.63e-01 | 100.0% | 24.5% |
| 3583849 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 62.0 | 5.18e-01 | 78.0% | 48.1% |
| 4419476 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 69.0 | 6.54e-01 | 100.0% | 73.7% |
| 5063898 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.83 | 78.0 | 6.62e-01 | 99.3% | 68.3% |
| None | — | 0.83 | 76.0 | 6.70e-01 | 96.7% | 72.7% | |
| 4943462 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.83 | 78.0 | 6.64e-01 | 100.0% | 68.7% |
| 5028612 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.82 | 78.0 | 6.73e-01 | 100.0% | 75.0% |
| 5049548 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.82 | 78.0 | 6.62e-01 | 100.0% | 70.0% |
| 4966695 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.82 | 78.0 | 6.76e-01 | 100.0% | 73.5% |
| 5023529 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.82 | 77.0 | 6.45e-01 | 100.0% | 77.5% |
| 4015744 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.80 | 75.0 | 6.42e-01 | 100.0% | 77.0% |
| 3821041 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.80 | 75.0 | 6.33e-01 | 100.0% | 76.2% |
| 4358538 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.76 | 68.0 | 6.46e-01 | 100.0% | 81.1% |
| 4357137 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.74 | 70.0 | 6.49e-01 | 100.0% | 81.1% |
| 4112669 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.73 | 69.0 | 6.43e-01 | 100.0% | 82.8% |
| 4887310 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.72 | 67.0 | 5.98e-01 | 100.0% | 75.4% |
| 3686594 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.66 | 35.0 | 4.70e-01 | 88.0% | 97.5% |
| 3810336 | 109.3.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat | 0.58 | 33.0 | 3.52e-01 | 77.3% | 61.5% |
| 4034151 | 604.39.1.9 ↗ | alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › Vut_1 | 0.56 | 41.0 | 3.68e-01 | 77.3% | 81.4% |
| 3963163 | 601.1.2.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) | 0.55 | 42.0 | 4.21e-01 | 80.7% | 85.8% |
| 4017892 | 149.1.1.1 ↗ | alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 | 0.53 | 43.0 | 3.05e-01 | 88.7% | 74.2% |
| 3419409 | 5069.1.3.0 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits | 0.52 | 42.0 | 4.04e-01 | 86.0% | 89.1% |
D3
medium
residues 460-572
Domain cluster:
rep: RNA_polymerase_RPB1_large_subunit__YP_009345156__Noumeavirus__1955558__D935-1023
D4
medium
residues 614-632_874-926
Domain cluster:
rep: RNA_polymerase_subunit_1__YP_009702665__African_swine_fever_virus__10497__D1317-1378
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04998.23 best | RNA_pol_Rpb1_5 | 43.4 | 4.20e-11 | 97.2% | 22.5% |
CATH (30)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1ynjJ01 | 1.10.1790.20 | Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › | 0.83 | 77.0 | 6.46e-01 | 100.0% | 93.1% |
| 7z7vE01 | 1.10.10.1590 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E | 0.71 | 47.0 | 5.08e-01 | 84.7% | 81.7% |
| 4ye6A02 | 1.10.10.2420 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.68 | 50.0 | 5.47e-01 | 94.4% | 96.6% |
| 1u84A00 | 1.10.340.20 | Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Apc36109-like domain | 0.68 | 50.0 | 4.80e-01 | 95.8% | 69.1% |
| 1kxpD01 | 1.10.246.10 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.67 | 54.0 | 5.09e-01 | 86.1% | 76.7% |
| 3a9fA01 | 1.10.760.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain | 0.63 | 44.0 | 4.49e-01 | 97.2% | 76.5% |
| 2xubA02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.62 | 48.0 | 4.46e-01 | 91.7% | 66.3% |
| 3q1xA01 | 1.10.3130.10 | Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1 | 0.61 | 48.0 | 3.87e-01 | 84.7% | 77.0% |
| 3ddhA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.59 | 46.0 | 4.49e-01 | 93.1% | 75.3% |
| 2pkeA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.59 | 47.0 | 4.59e-01 | 86.1% | 91.0% |
| 2c42A03 | 3.40.920.10 | Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III | 0.59 | 47.0 | 3.39e-01 | 87.5% | 88.2% |
| 3hyuA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.59 | 48.0 | 3.95e-01 | 93.1% | 84.4% |
| 3ol4A02 | 1.10.10.2390 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.58 | 41.0 | 4.38e-01 | 91.7% | 91.7% |
| 1hlbA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.58 | 48.0 | 3.77e-01 | 93.1% | 80.9% |
| 1cg5B00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.56 | 46.0 | 3.77e-01 | 93.1% | 85.8% |
| 1cukA02 | 1.10.150.20 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain | 0.56 | 38.0 | 3.75e-01 | 100.0% | 65.8% |
| 3u5nA02 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.55 | 42.0 | 3.61e-01 | 83.3% | 85.0% |
| 1h99A01 | 1.10.1790.10 | Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain | 0.55 | 45.0 | 4.09e-01 | 95.8% | 94.2% |
| 3umgA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.54 | 45.0 | 4.54e-01 | 95.8% | 93.0% |
| 2m4eA00 | 1.20.120.1930 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF16691 family | 0.54 | 40.0 | 3.84e-01 | 80.6% | 80.2% |
| 3f4mA00 | 1.20.1440.160 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like | 0.53 | 44.0 | 3.48e-01 | 91.7% | 89.0% |
| 2ysrA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.53 | 44.0 | 3.97e-01 | 95.8% | 91.4% |
| 1w53A00 | 1.10.1240.30 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain | 0.53 | 43.0 | 4.14e-01 | 91.7% | 77.4% |
| 3keyA01 | 1.10.10.1080 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain | 0.53 | 40.0 | 3.84e-01 | 83.3% | 80.5% |
| 5mmiJ02 | 1.10.10.250 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain | 0.52 | 42.0 | 4.28e-01 | 94.4% | 95.7% |
| 3fflA00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.52 | 41.0 | 3.41e-01 | 84.7% | 85.7% |
| 3k3uA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.52 | 42.0 | 3.51e-01 | 93.1% | 90.5% |
| 4f92B10 | 1.10.3380.10 | Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain | 0.51 | 43.0 | 3.51e-01 | 97.2% | 84.6% |
| 2mpkA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.50 | 42.0 | 4.17e-01 | 93.1% | 94.6% |
| 2jbwA01 | 1.20.1440.110 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase | 0.50 | 40.0 | 3.51e-01 | 84.7% | 62.1% |
ECOD (29)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3867110 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.95 | 86.0 | 6.05e-01 | 100.0% | 35.8% |
| 4021032 | 4954.1.1.0 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit | 0.95 | 88.0 | 6.11e-01 | 100.0% | 35.0% |
| 5039722 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.94 | 84.0 | 5.63e-01 | 100.0% | 29.1% |
| 4015742 | 4954.1.1.0 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit | 0.93 | 87.0 | 6.29e-01 | 100.0% | 40.6% |
| 5055205 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.92 | 70.0 | 5.62e-01 | 77.8% | 46.3% |
| 4932738 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.91 | 84.0 | 6.24e-01 | 100.0% | 43.8% |
| 3381774 | 4954.1.1.0 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit | 0.90 | 81.0 | 5.85e-01 | 100.0% | 38.9% |
| 5023533 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.89 | 84.0 | 5.98e-01 | 100.0% | 38.6% |
| 4035852 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.88 | 81.0 | 5.40e-01 | 100.0% | 44.3% |
| 4143836 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.85 | 79.0 | 5.11e-01 | 100.0% | 53.7% |
| 3444901 | 4954.1.1.0 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit | 0.85 | 70.0 | 5.01e-01 | 84.7% | 46.9% |
| 3609667 | 4954.1.1.1 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.85 | 81.0 | 5.73e-01 | 100.0% | 44.2% |
| 4887312 | 4954.1.1.0 ↗ | a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit | 0.83 | 79.0 | 5.61e-01 | 100.0% | 44.1% |
| 3452645 | 101.35.1.31 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › Gliadin | 0.67 | 54.0 | 4.97e-01 | 94.4% | 68.4% |
| 3706196 | 70.3.1.1 ↗ | beta barrels › beta-clip › SET domain-like › SET domain-like › SET | 0.66 | 51.0 | 3.31e-01 | 83.3% | 53.2% |
| 3785011 | 106.1.1.0 ↗ | alpha arrays › Globin-like › Globin-like › Globin-like | 0.64 | 51.0 | 4.36e-01 | 87.5% | 100.0% |
| 3541577 | 101.1.2.301 ↗ | alpha arrays › HTH › HTH › winged helix domain › DUF4616 | 0.62 | 54.0 | 5.23e-01 | 95.8% | 88.7% |
| 3285585 | 191.1.1.0 ↗ | alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain | 0.60 | 53.0 | 4.35e-01 | 100.0% | 76.3% |
| 4994765 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.60 | 50.0 | 4.55e-01 | 94.4% | 80.0% |
| 4946290 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.59 | 41.0 | 4.26e-01 | 97.2% | 80.0% |
| 5053839 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.59 | 46.0 | 4.59e-01 | 98.6% | 81.3% |
| 5037203 | 2004.1.1.42 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE | 0.59 | 47.0 | 2.90e-01 | 100.0% | 13.6% |
| 3736606 | 3924.1.1.0 ↗ | alpha complex topology › Sterol uptake control protein 2 › Sterol uptake control protein 2 › Sterol uptake control protein 2 | 0.57 | 40.0 | 2.94e-01 | 72.2% | 30.8% |
| 4941542 | 5057.1.1.0 ↗ | alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore | 0.56 | 48.0 | 4.04e-01 | 100.0% | 91.5% |
| 3719636 | 108.1.1.0 ↗ | alpha arrays › EF-hand › EF-hand-related › EF-hand | 0.56 | 48.0 | 3.23e-01 | 100.0% | 26.3% |
| 3992827 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.55 | 44.0 | 4.51e-01 | 100.0% | 91.4% |
| 3710862 | 192.29.1.197 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF4110 | 0.54 | 41.0 | 3.56e-01 | 83.3% | 53.3% |
| 3607753 | 3291.1.1.123 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF4110 | 0.53 | 39.0 | 3.46e-01 | 81.9% | 56.5% |
| 3472979 | 1021.1.1.2 ↗ | a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD | 0.51 | 36.0 | 3.20e-01 | 75.0% | 71.4% |
D5
medium
residues 672-744_764-794